Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A4 F1 I2 R1	780	68.3	3343050	93.5%	3125751	102.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,915,105	C→T	P17S (CCG→TCG)	barA →	hybrid sensory histidine kinase, in two‑component regulatory system with UvrY

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,915,105	0	C	T	100.0%	175.2 / NA	55	P17S (CCG→TCG)	barA	hybrid sensory histidine kinase, in two‑component regulatory system with UvrY
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (31/24); total (31/24)

CCATTGGCGAGACTTTCTCAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCACCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGTTTCTACTGAATATGGCATGAGC  >  NC_000913/2914997‑2915239

ccATTGGCGAGACTTTCTCCATTTAACAGGGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTa                                                                                                          >  2:1114811/1‑139 (MQ=255)

ccATTGGCGAGACTTTCTCAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCatcgacc                                                                                                                                   >  2:1540847/1‑114 (MQ=255)

ccATTGGCGAGACTTTCTCAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCatcgacc                                                                                                                                   <  1:1540847/114‑1 (MQ=255)

ccATTGGCGAGACTTTCTCAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGc                                                                                                                >  1:519472/1‑133 (MQ=255)

ccATTGGCGAGACTTTCTCAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGc                                                                                                                <  2:519472/133‑1 (MQ=255)

   ttGGCGAGACTTTCTCAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCt                                                                                                       >  1:497623/1‑139 (MQ=255)

                 tcAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCaa                                                                                         <  1:610717/139‑2 (MQ=255)

                 tcAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCAt                                                                                         >  2:610717/1‑139 (MQ=255)

                 tcAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCAt                                                                                         <  2:497623/139‑1 (MQ=255)

                              gtgACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACt                                                                            >  2:1629284/1‑139 (MQ=255)

                               tgACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCta                                                                                    <  1:1146073/130‑1 (MQ=255)

                               tgACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCta                                                                                    >  2:1146073/1‑130 (MQ=255)

                               tgACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACtt                                                                           >  1:900547/1‑139 (MQ=255)

                                 aCCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCtt                                                                                                                             >  2:1121481/1‑87 (MQ=255)

                                 aCCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCtt                                                                                                                             <  1:1121481/87‑1 (MQ=255)

                                           tCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCAt                                                                                         >  2:1283439/1‑113 (MQ=255)

                                           tCCCATAACGGAACTCCATGACCAACCACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCAt                                                                                         <  1:1283439/113‑1 (MQ=255)

                                               aTAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACCACTTGCAGCGTCAACTGGaa                                                           >  1:1390087/1‑139 (MQ=255)

                                                tAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCatcgacc                                                                                                                                   <  2:801527/66‑1 (MQ=255)

                                                tAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCatcgacc                                                                                                                                   >  1:801527/1‑66 (MQ=255)

                                                     gAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTtcg                                                                                                 <  2:1262935/95‑1 (MQ=255)

                                                     gAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTtcg                                                                                                 >  1:1262935/1‑95 (MQ=255)

                                                     gAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGcc                                                     >  1:1161022/1‑139 (MQ=255)

                                                           cATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCtt                                                                                                      >  1:1469262/1‑84 (MQ=255)

                                                           cATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCtt                                                                                                      <  2:1469262/84‑1 (MQ=255)

                                                             tGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAg                                             <  2:1161022/139‑1 (MQ=255)

                                                                   aCTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCAt                                                                                         <  1:1071590/89‑1 (MQ=255)

                                                                   aCTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCAt                                                                                         >  2:1071590/1‑89 (MQ=255)

                                                                     tACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTg                                     >  2:1051819/1‑139 (MQ=255)

                                                                       cAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAg                                   <  1:1051819/139‑1 (MQ=255)

                                                                            tGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCt                                                                                                               >  2:1566286/1‑58 (MQ=255)

                                                                            tGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCt                                                                                                               <  1:1566286/58‑1 (MQ=255)

                                                                            tGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCt                              >  2:697638/1‑139 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGGCatcgacc                                                                                                                                   >  1:398032/1‑36 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGGCatcgacc                                                                                                                                   <  2:398032/36‑1 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGGCATCGACCGTcc                                                                                                                               <  1:1150928/40‑1 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGGCATCGACCGTcc                                                                                                                               >  2:1150928/1‑40 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCAt                                                                                         >  1:49802/1‑78 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCAt                                                                                         <  2:49802/78‑1 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAAc                                                                >  1:472163/1‑103 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAAc                                                                <  2:472163/103‑1 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGc                                                      >  2:991877/1‑113 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGc                                                      <  1:991877/113‑1 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTg                            >  2:934844/1‑139 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTg                            >  1:559902/1‑139 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTg                            >  2:189971/1‑139 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTg                            >  2:1191181/1‑139 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTg                            >  1:221485/1‑139 (MQ=255)

                                                                              cgcgcACGCATGATGATTCTGATCCTGACATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTg                            >  2:616602/1‑139 (MQ=255)

                                                                                  cacgcaTGATGATTCTGATCCTGGCATCGACCGTCCTTATTGTTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCATCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGt                        <  1:1191181/139‑1 (MQ=255)

                                                                                  cacgcaTGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGt                        <  1:1629284/139‑1 (MQ=255)

                                                                                  cacgcaTGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGt                        <  2:900547/139‑1 (MQ=255)

                                                                                  cacgcaTGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGt                        <  1:189971/139‑1 (MQ=255)

                                                                                    cgcaTGATGATTCTGATCCTGACATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGttt                      <  1:616602/139‑1 (MQ=255)

                                                                                              ttCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGTTTCTACTGAata            <  2:221485/139‑1 (MQ=255)

                                                                                               tCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGTTTCTACTGAatat           >  2:179772/1‑139 (MQ=255)

                                                                                                       tGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAg                                                          >  1:1301319/1‑84 (MQ=255)

                                                                                                       tGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAg                                                          <  2:1301319/84‑1 (MQ=255)

                                                                                                        ggCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTg                                                                          >  1:1505792/1‑67 (MQ=255)

                                                                                                        ggCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTg                                                                          <  2:1505792/67‑1 (MQ=255)

                                                                                                        ggCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGTTTCTACTGAATATGGCATGAGc  >  1:1282012/1‑139 (MQ=255)

CCATTGGCGAGACTTTCTCAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCACCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGTTTCTACTGAATATGGCATGAGC  >  NC_000913/2914997‑2915239

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A